Michael A Fischbach

Michael A Fischbach

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Michael A Fischbach

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Mapping the Genetic Landscape of Human Cells.

Cell 2018 08 19;174(4):953-967.e22. Epub 2018 Jul 19.

Department of Urology, University of California, San Francisco, San Francisco, CA 94158, USA; Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.06.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426455PMC
August 2018

Microbiome: Focus on Causation and Mechanism.

Cell 2018 08;174(4):785-790

Department of Bioengineering and ChEM-H, Stanford University and Chan Zuckerberg Biohub, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.07.038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6094951PMC
August 2018

Gut Microbiota-Produced Tryptamine Activates an Epithelial G-Protein-Coupled Receptor to Increase Colonic Secretion.

Cell Host Microbe 2018 06;23(6):775-785.e5

Division of Gastroenterology and Hepatology, Mayo Clinic, Rochester, MN 55905, USA; Department of Physiology and Biomedical Engineering, Mayo Clinic, Rochester, MN 55905, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chom.2018.05.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6055526PMC
June 2018

Contextual control of skin immunity and inflammation by .

J Exp Med 2018 03 30;215(3):785-799. Epub 2018 Jan 30.

Mucosal Immunology Section, Laboratory of Parasitic Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD

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http://dx.doi.org/10.1084/jem.20171079DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5839758PMC
March 2018

The Biosynthesis of Lipooligosaccharide from .

MBio 2018 03 13;9(2). Epub 2018 Mar 13.

Department of Bioengineering and Therapeutic Sciences and California Institute for Quantitative Biosciences, University of California, San Francisco, California, USA

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http://dx.doi.org/10.1128/mBio.02289-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850320PMC
March 2018

Erratum: Skin microbiota-host interactions.

Nature 2018 03;555(7697):543

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http://dx.doi.org/10.1038/nature25994DOI Listing
March 2018

Skin microbiota-host interactions.

Nature 2018 01;553(7689):427-436

NIAID Microbiome Program, National Institute of Allergy and Infectious Disease, NIH, Bethesda, Maryland, USA.

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http://dx.doi.org/10.1038/nature25177DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6075667PMC
January 2018

A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites.

Nature 2017 11 22;551(7682):648-652. Epub 2017 Nov 22.

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA.

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http://dx.doi.org/10.1038/nature24661DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850949PMC
November 2017

Discovery of Reactive Microbiota-Derived Metabolites that Inhibit Host Proteases.

Cell 2017 01 19;168(3):517-526.e18. Epub 2017 Jan 19.

Department of Bioengineering and Therapeutic Sciences and California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.12.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5302092PMC
January 2017

Modulation of a Circulating Uremic Solute via Rational Genetic Manipulation of the Gut Microbiota.

Cell Host Microbe 2016 Dec 1;20(6):709-715. Epub 2016 Dec 1.

Department of Bioengineering and Therapeutic Sciences and California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94143, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S19313128163044
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http://dx.doi.org/10.1016/j.chom.2016.10.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5159218PMC
December 2016

Synthetic biology to access and expand nature's chemical diversity.

Nat Rev Microbiol 2016 Mar;14(3):135-49

Synthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5048682PMC
http://dx.doi.org/10.1038/nrmicro.2015.24DOI Listing
March 2016

Signaling in Host-Associated Microbial Communities.

Cell 2016 Mar;164(6):1288-1300

Microbial Genomics Section, Translational and Functional Genomics Branch, National Human Genome Research Institute, Bethesda, MD 20892, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.02.037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4801507PMC
March 2016

MetaQuery: a web server for rapid annotation and quantitative analysis of specific genes in the human gut microbiome.

Bioinformatics 2015 Oct 22;31(20):3368-70. Epub 2015 Jun 22.

Integrative Program in Quantitative Biology, Gladstone Institutes, and Division of Biostatistics, University of California San Francisco and.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btv382DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4595903PMC
October 2015

Genome-Directed Lead Discovery: Biosynthesis, Structure Elucidation, and Biological Evaluation of Two Families of Polyene Macrolactams against Trypanosoma brucei.

ACS Chem Biol 2015 Oct 13;10(10):2373-81. Epub 2015 Aug 13.

Department of Chemistry and Biochemistry, University of California Santa Cruz , Santa Cruz, California 95064, United States.

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http://dx.doi.org/10.1021/acschembio.5b00308DOI Listing
October 2015

A biosynthetic pathway for a prominent class of microbiota-derived bile acids.

Nat Chem Biol 2015 Sep 20;11(9):685-90. Epub 2015 Jul 20.

1] Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, USA. [2] California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, California, USA.

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http://dx.doi.org/10.1038/nchembio.1864DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4543561PMC
September 2015

Minimum Information about a Biosynthetic Gene cluster.

Authors:
Marnix H Medema Renzo Kottmann Pelin Yilmaz Matthew Cummings John B Biggins Kai Blin Irene de Bruijn Yit Heng Chooi Jan Claesen R Cameron Coates Pablo Cruz-Morales Srikanth Duddela Stephanie Düsterhus Daniel J Edwards David P Fewer Neha Garg Christoph Geiger Juan Pablo Gomez-Escribano Anja Greule Michalis Hadjithomas Anthony S Haines Eric J N Helfrich Matthew L Hillwig Keishi Ishida Adam C Jones Carla S Jones Katrin Jungmann Carsten Kegler Hyun Uk Kim Peter Kötter Daniel Krug Joleen Masschelein Alexey V Melnik Simone M Mantovani Emily A Monroe Marcus Moore Nathan Moss Hans-Wilhelm Nützmann Guohui Pan Amrita Pati Daniel Petras F Jerry Reen Federico Rosconi Zhe Rui Zhenhua Tian Nicholas J Tobias Yuta Tsunematsu Philipp Wiemann Elizabeth Wyckoff Xiaohui Yan Grace Yim Fengan Yu Yunchang Xie Bertrand Aigle Alexander K Apel Carl J Balibar Emily P Balskus Francisco Barona-Gómez Andreas Bechthold Helge B Bode Rainer Borriss Sean F Brady Axel A Brakhage Patrick Caffrey Yi-Qiang Cheng Jon Clardy Russell J Cox René De Mot Stefano Donadio Mohamed S Donia Wilfred A van der Donk Pieter C Dorrestein Sean Doyle Arnold J M Driessen Monika Ehling-Schulz Karl-Dieter Entian Michael A Fischbach Lena Gerwick William H Gerwick Harald Gross Bertolt Gust Christian Hertweck Monica Höfte Susan E Jensen Jianhua Ju Leonard Katz Leonard Kaysser Jonathan L Klassen Nancy P Keller Jan Kormanec Oscar P Kuipers Tomohisa Kuzuyama Nikos C Kyrpides Hyung-Jin Kwon Sylvie Lautru Rob Lavigne Chia Y Lee Bai Linquan Xinyu Liu Wen Liu Andriy Luzhetskyy Taifo Mahmud Yvonne Mast Carmen Méndez Mikko Metsä-Ketelä Jason Micklefield Douglas A Mitchell Bradley S Moore Leonilde M Moreira Rolf Müller Brett A Neilan Markus Nett Jens Nielsen Fergal O'Gara Hideaki Oikawa Anne Osbourn Marcia S Osburne Bohdan Ostash Shelley M Payne Jean-Luc Pernodet Miroslav Petricek Jörn Piel Olivier Ploux Jos M Raaijmakers José A Salas Esther K Schmitt Barry Scott Ryan F Seipke Ben Shen David H Sherman Kaarina Sivonen Michael J Smanski Margherita Sosio Evi Stegmann Roderich D Süssmuth Kapil Tahlan Christopher M Thomas Yi Tang Andrew W Truman Muriel Viaud Jonathan D Walton Christopher T Walsh Tilmann Weber Gilles P van Wezel Barrie Wilkinson Joanne M Willey Wolfgang Wohlleben Gerard D Wright Nadine Ziemert Changsheng Zhang Sergey B Zotchev Rainer Breitling Eriko Takano Frank Oliver Glöckner

Nat Chem Biol 2015 Sep;11(9):625-31

1] Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, Bremen, Germany. [2] Jacobs University Bremen gGmbH, Bremen, Germany.

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http://orbit.dtu.dk/files/115504295/Minimum_Information_abou
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http://www.nature.com/doifinder/10.1038/nchembio.1890
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http://dx.doi.org/10.1038/nchembio.1890DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5714517PMC
September 2015

Computational approaches to natural product discovery.

Nat Chem Biol 2015 Sep;11(9):639-48

1] Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, USA. [2] California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, California, USA.

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http://dx.doi.org/10.1038/nchembio.1884DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5024737PMC
September 2015

A Phase-Variable Surface Layer from the Gut Symbiont Bacteroides thetaiotaomicron.

MBio 2015 Sep 29;6(5):e01339-15. Epub 2015 Sep 29.

Department of Bioengineering and Therapeutic Sciences and California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, California, USA

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http://dx.doi.org/10.1128/mBio.01339-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4611039PMC
September 2015

antiSMASH 3.0-a comprehensive resource for the genome mining of biosynthetic gene clusters.

Nucleic Acids Res 2015 Jul 6;43(W1):W237-43. Epub 2015 May 6.

Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, Bremen, Germany Bioinformatics Group, Wageningen University, Wageningen, The Netherlands

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http://dx.doi.org/10.1093/nar/gkv437DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489286PMC
July 2015

HUMAN MICROBIOTA. Small molecules from the human microbiota.

Science 2015 Jul 23;349(6246):1254766. Epub 2015 Jul 23.

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA.

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http://dx.doi.org/10.1126/science.1254766DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4641445PMC
July 2015

Synthetic microbes as drug delivery systems.

ACS Synth Biol 2015 Apr 13;4(4):358-64. Epub 2014 Aug 13.

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, California 94158, United States.

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http://dx.doi.org/10.1021/sb500258bDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4410909PMC
April 2015

The prevalence of species and strains in the human microbiome: a resource for experimental efforts.

PLoS One 2014 14;9(5):e97279. Epub 2014 May 14.

The Genome Institute, Washington University School of Medicine, Saint Louis, Missouri, United States of America; Department of Medicine, Washington University School of Medicine, Saint Louis, Missouri, United States of America; Department of Genetics, Washington University School of Medicine, Saint Louis, Missouri, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0097279PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4020798PMC
January 2015

A systematic computational analysis of biosynthetic gene cluster evolution: lessons for engineering biosynthesis.

PLoS Comput Biol 2014 Dec 4;10(12):e1004016. Epub 2014 Dec 4.

Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, United States of America; California Institute for Quantitative Biosciences, San Francisco, California, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1004016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256081PMC
December 2014

Discovery and characterization of gut microbiota decarboxylases that can produce the neurotransmitter tryptamine.

Cell Host Microbe 2014 Oct 25;16(4):495-503. Epub 2014 Sep 25.

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chom.2014.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4260654PMC
October 2014

A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics.

Cell 2014 Sep;158(6):1402-1414

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.08.032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4164201PMC
September 2014

Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters.

Cell 2014 Jul;158(2):412-421

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.06.034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4123684PMC
July 2014

Key applications of plant metabolic engineering.

PLoS Biol 2014 Jun 10;12(6):e1001879. Epub 2014 Jun 10.

Department of Chemical Engineering, Stanford University, Stanford, California, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1001879DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4051588PMC
June 2014

What Lives On Our Skin: Ecology, Genomics and Therapeutic Opportunities Of the Skin Microbiome.

Drug Discov Today Dis Mech 2013 Dec;10(3-4)

Department of Dermatology, University of California, San Francisco School of Medicine, 1701 Divisadero Street, 3 Floor, San Francisco, CA 94115.

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http://dx.doi.org/10.1016/j.ddmec.2012.12.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3833721PMC
December 2013

antiSMASH 2.0--a versatile platform for genome mining of secondary metabolite producers.

Nucleic Acids Res 2013 Jul 3;41(Web Server issue):W204-12. Epub 2013 Jun 3.

Interfaculty Institute of Microbiology and Infection Medicine Tübingen, Eberhard Karls University Tübingen, 72076, Germany.

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http://dx.doi.org/10.1093/nar/gkt449DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3692088PMC
July 2013

Production of α-galactosylceramide by a prominent member of the human gut microbiota.

PLoS Biol 2013 Jul 16;11(7):e1001610. Epub 2013 Jul 16.

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, California, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1001610DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3712910PMC
July 2013

Cell-based therapeutics: the next pillar of medicine.

Sci Transl Med 2013 Apr;5(179):179ps7

UCSF Center for Systems and Synthetic Biology, University of California, San Francisco, San Francisco, CA 94158, USA. fischbach@f schbach-group.org

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http://dx.doi.org/10.1126/scitranslmed.3005568DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3772767PMC
April 2013

Dyeing to learn more about the gut microbiota.

Cell Host Microbe 2013 Feb;13(2):119-20

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA.

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http://dx.doi.org/10.1016/j.chom.2013.01.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3690940PMC
February 2013

Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations.

Anal Chem 2012 Nov 10;84(21):9259-67. Epub 2012 Oct 10.

Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, San Diego, California 92093, United States.

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http://dx.doi.org/10.1021/ac302039uDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3711173PMC
November 2012

Molecular insights into the biosynthesis of guadinomine: a type III secretion system inhibitor.

J Am Chem Soc 2012 Oct 10;134(42):17797-806. Epub 2012 Oct 10.

Department of Chemical Engineering, Stanford University, Stanford, California 94305, USA.

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http://dx.doi.org/10.1021/ja308622dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483642PMC
October 2012

Microbiota-targeted therapies: an ecological perspective.

Sci Transl Med 2012 Jun;4(137):137rv5

Department of Molecular Genetics, The Forsyth Institute, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/scitranslmed.3004183DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5725196PMC
June 2012

Combination therapies for combating antimicrobial resistance.

Curr Opin Microbiol 2011 Oct 6;14(5):519-23. Epub 2011 Sep 6.

Department of Bioengineering and Therapeutic Sciences and the California Institute for Quantitative Biosciences, University of California, San Francisco, CA 94158, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S13695274110013
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http://dx.doi.org/10.1016/j.mib.2011.08.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3196371PMC
October 2011

A mass spectrometry-guided genome mining approach for natural product peptidogenomics.

Nat Chem Biol 2011 Oct 9;7(11):794-802. Epub 2011 Oct 9.

Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, California, USA.

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http://dx.doi.org/10.1038/nchembio.684DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3258187PMC
October 2011

Eating for two: how metabolism establishes interspecies interactions in the gut.

Cell Host Microbe 2011 Oct;10(4):336-47

Department of Bioengineering and Therapeutic Sciences and California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA 94158, USA.

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http://dx.doi.org/10.1016/j.chom.2011.10.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3225337PMC
October 2011

antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences.

Nucleic Acids Res 2011 Jul 14;39(Web Server issue):W339-46. Epub 2011 Jun 14.

Department of Microbial Physiology, Groningen Bioinformatics Centre, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 7, 9747AG Groningen, The Netherlands.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkr466DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3125804PMC
July 2011

Community health care: therapeutic opportunities in the human microbiome.

Sci Transl Med 2011 Apr;3(78):78ps12

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1126/scitranslmed.3001626DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287364PMC
April 2011

The next frontier of systems biology: higher-order and interspecies interactions.

Genome Biol 2010 5;11(5):208. Epub 2010 May 5.

Department of Bioengineering and Therapeutic Sciences and California Institute of Quantitative Biosciences, University of California, San Francisco, CA 94158, USA.

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http://dx.doi.org/10.1186/gb-2010-11-5-208DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2898071PMC
September 2010

A family of pyrazinone natural products from a conserved nonribosomal peptide synthetase in Staphylococcus aureus.

Chem Biol 2010 Sep;17(9):925-30

Department of Bioengineering and Therapeutic Sciences, California Institute for Quantitative Biosciences, University of California, San Francisco, 94158, USA.

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http://dx.doi.org/10.1016/j.chembiol.2010.08.006DOI Listing
September 2010

Dapdiamides, tripeptide antibiotics formed by unconventional amide ligases.

J Nat Prod 2010 Mar;73(3):441-6

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1021/np900685zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2846032PMC
March 2010

Natural products version 2.0: connecting genes to molecules.

J Am Chem Soc 2010 Mar;132(8):2469-93

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1021/ja909118aDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2828520PMC
March 2010

Antibiotics from microbes: converging to kill.

Curr Opin Microbiol 2009 Oct 18;12(5):520-7. Epub 2009 Aug 18.

Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA 02114, USA.

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http://dx.doi.org/10.1016/j.mib.2009.07.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176294PMC
October 2009

Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans.

Authors:
Brian J Haas Sophien Kamoun Michael C Zody Rays H Y Jiang Robert E Handsaker Liliana M Cano Manfred Grabherr Chinnappa D Kodira Sylvain Raffaele Trudy Torto-Alalibo Tolga O Bozkurt Audrey M V Ah-Fong Lucia Alvarado Vicky L Anderson Miles R Armstrong Anna Avrova Laura Baxter Jim Beynon Petra C Boevink Stephanie R Bollmann Jorunn I B Bos Vincent Bulone Guohong Cai Cahid Cakir James C Carrington Megan Chawner Lucio Conti Stefano Costanzo Richard Ewan Noah Fahlgren Michael A Fischbach Johanna Fugelstad Eleanor M Gilroy Sante Gnerre Pamela J Green Laura J Grenville-Briggs John Griffith Niklaus J Grünwald Karolyn Horn Neil R Horner Chia-Hui Hu Edgar Huitema Dong-Hoon Jeong Alexandra M E Jones Jonathan D G Jones Richard W Jones Elinor K Karlsson Sridhara G Kunjeti Kurt Lamour Zhenyu Liu Lijun Ma Daniel Maclean Marcus C Chibucos Hayes McDonald Jessica McWalters Harold J G Meijer William Morgan Paul F Morris Carol A Munro Keith O'Neill Manuel Ospina-Giraldo Andrés Pinzón Leighton Pritchard Bernard Ramsahoye Qinghu Ren Silvia Restrepo Sourav Roy Ari Sadanandom Alon Savidor Sebastian Schornack David C Schwartz Ulrike D Schumann Ben Schwessinger Lauren Seyer Ted Sharpe Cristina Silvar Jing Song David J Studholme Sean Sykes Marco Thines Peter J I van de Vondervoort Vipaporn Phuntumart Stephan Wawra Rob Weide Joe Win Carolyn Young Shiguo Zhou William Fry Blake C Meyers Pieter van West Jean Ristaino Francine Govers Paul R J Birch Stephen C Whisson Howard S Judelson Chad Nusbaum

Nature 2009 Sep 9;461(7262):393-8. Epub 2009 Sep 9.

Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA.

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http://dx.doi.org/10.1038/nature08358DOI Listing
September 2009

Antibiotics for emerging pathogens.

Science 2009 Aug;325(5944):1089-93

Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA 02114, USA.

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http://www.sciencemag.org/cgi/doi/10.1126/science.1176667
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http://dx.doi.org/10.1126/science.1176667DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2802854PMC
August 2009

New ways to squash superbugs.

Sci Am 2009 Jul;301(1):44-51

Harvard Medical School, USA.

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http://dx.doi.org/10.1038/scientificamerican0709-44DOI Listing
July 2009

The natural history of antibiotics.

Curr Biol 2009 Jun;19(11):R437-41

Department of Biological Chemistry and Molecular Pharmacology, Harvard University, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.cub.2009.04.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2731226PMC
June 2009

Repurposing libraries of eukaryotic protein kinase inhibitors for antibiotic discovery.

Proc Natl Acad Sci U S A 2009 Feb 4;106(6):1689-90. Epub 2009 Feb 4.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0813405106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2644097PMC
February 2009

Thirteen posttranslational modifications convert a 14-residue peptide into the antibiotic thiocillin.

Proc Natl Acad Sci U S A 2009 Feb 5;106(8):2549-53. Epub 2009 Feb 5.

Department of Molecular Biology, Massachusetts General Hospital, Boston, MA 02114, USA.

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http://dx.doi.org/10.1073/pnas.0900008106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2650375PMC
February 2009

Structurally diverse natural products that cause potassium leakage trigger multicellularity in Bacillus subtilis.

Proc Natl Acad Sci U S A 2009 Jan 29;106(1):280-5. Epub 2008 Dec 29.

Department of Microbiology and Molecular Genetics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0810940106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2629187PMC
January 2009

Inhibitors of sterol biosynthesis as Staphylococcus aureus antibiotics.

Angew Chem Int Ed Engl 2008 ;47(31):5700-2

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1002/anie.200801801DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2603329PMC
August 2008

Total biosynthesis: in vitro reconstitution of polyketide and nonribosomal peptide pathways.

Nat Prod Rep 2008 Aug 23;25(4):757-93. Epub 2008 May 23.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Ave., Boston, MA 02115, USA.

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http://xlink.rsc.org/?DOI=b801747f
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http://dx.doi.org/10.1039/b801747fDOI Listing
August 2008

Regulation of the nucleotide state of oncogenic ras proteins by nucleoside diphosphate kinase.

Methods Enzymol 2006 ;407:33-45

General Hospital Cancer Center, Harvard Medical School, Charlestown, Massachusetts, USA.

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http://dx.doi.org/10.1016/S0076-6879(05)07004-7DOI Listing
June 2008

The evolution of gene collectives: How natural selection drives chemical innovation.

Proc Natl Acad Sci U S A 2008 Mar 23;105(12):4601-8. Epub 2008 Jan 23.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0709132105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2290807PMC
March 2008

Biosynthetic tailoring of microcin E492m: post-translational modification affords an antibacterial siderophore-peptide conjugate.

J Am Chem Soc 2007 Nov 31;129(46):14336-47. Epub 2007 Oct 31.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1021/ja074650fDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2522288PMC
November 2007

One pathway, many products.

Nat Chem Biol 2007 Jul;3(7):353-5

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nchembio0707-353DOI Listing
July 2007

Directed evolution can rapidly improve the activity of chimeric assembly-line enzymes.

Proc Natl Acad Sci U S A 2007 Jul 9;104(29):11951-6. Epub 2007 Jul 9.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0705348104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1924594PMC
July 2007

A singular enzymatic megacomplex from Bacillus subtilis.

Proc Natl Acad Sci U S A 2007 Jan 26;104(1):305-10. Epub 2006 Dec 26.

Department of Microbiology and Molecular Genetics and Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0609073103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1765455PMC
January 2007

The identification of bacillaene, the product of the PksX megacomplex in Bacillus subtilis.

Proc Natl Acad Sci U S A 2007 Jan 18;104(5):1506-9. Epub 2007 Jan 18.

Department of Biological Chemistry and Molecular Pharmacology Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0610503104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1785240PMC
January 2007

New antibiotics from bacterial natural products.

Nat Biotechnol 2006 Dec;24(12):1541-50

Department of Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nbt1266DOI Listing
December 2006

The pathogen-associated iroA gene cluster mediates bacterial evasion of lipocalin 2.

Proc Natl Acad Sci U S A 2006 Oct 23;103(44):16502-7. Epub 2006 Oct 23.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0604636103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1637611PMC
October 2006

Biochemistry. Directing biosynthesis.

Science 2006 Oct;314(5799):603-5

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1126/science.1132692DOI Listing
October 2006

Assembly-line enzymology for polyketide and nonribosomal Peptide antibiotics: logic, machinery, and mechanisms.

Chem Rev 2006 Aug;106(8):3468-96

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1021/cr0503097DOI Listing
August 2006

A biosynthetic gene cluster for the acetyl-CoA carboxylase inhibitor andrimid.

J Am Chem Soc 2006 Aug;128(33):10660-1

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1021/ja063194cDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2529255PMC
August 2006

Localized protein interaction surfaces on the EntB carrier protein revealed by combinatorial mutagenesis and selection.

J Am Chem Soc 2006 Aug;128(34):11002-3

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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https://pubs.acs.org/doi/10.1021/ja063238h
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August 2006

Bromoenterobactins as potent inhibitors of a pathogen-associated, siderophore-modifying C-glycosyltransferase.

J Am Chem Soc 2006 Jul;128(29):9324-5

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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https://pubs.acs.org/doi/10.1021/ja063236x
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July 2006

"Oncogenic shock": explaining oncogene addiction through differential signal attenuation.

Clin Cancer Res 2006 Jul;12(14 Pt 2):4392s-4395s

Center for Molecular Therapeutics, Massachusetts General Hospital Cancer Center and Harvard Medical School, Charlestown, Massachusetts 02129, USA.

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http://dx.doi.org/10.1158/1078-0432.CCR-06-0096DOI Listing
July 2006

A protein interaction surface in nonribosomal peptide synthesis mapped by combinatorial mutagenesis and selection.

Proc Natl Acad Sci U S A 2006 Apr 27;103(14):5314-9. Epub 2006 Mar 27.

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0601038103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1459352PMC
April 2006

How pathogenic bacteria evade mammalian sabotage in the battle for iron.

Nat Chem Biol 2006 Mar;2(3):132-8

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA.

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http://www.nature.com/articles/nchembio771
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http://dx.doi.org/10.1038/nchembio771DOI Listing
March 2006

Mixing with bubbles: a practical technology for use with portable microfluidic devices.

Lab Chip 2006 Feb 15;6(2):207-12. Epub 2005 Dec 15.

Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford St., Cambridge, MA, USA.

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http://dx.doi.org/10.1039/b510843hDOI Listing
February 2006

In vitro characterization of salmochelin and enterobactin trilactone hydrolases IroD, IroE, and Fes.

J Am Chem Soc 2005 Aug;127(31):11075-84

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1021/ja0522027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2536649PMC
August 2005

In vitro characterization of IroB, a pathogen-associated C-glycosyltransferase.

Proc Natl Acad Sci U S A 2005 Jan 14;102(3):571-6. Epub 2004 Dec 14.

Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA.

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http://dx.doi.org/10.1073/pnas.0408463102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC545562PMC
January 2005

Dynamic control of liquid-core/liquid-cladding optical waveguides.

Proc Natl Acad Sci U S A 2004 Aug 16;101(34):12434-8. Epub 2004 Aug 16.

Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02138, USA.

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http://dx.doi.org/10.1073/pnas.0404423101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC515079PMC
August 2004

Specific biochemical inactivation of oncogenic Ras proteins by nucleoside diphosphate kinase.

Cancer Res 2003 Jul;63(14):4089-94

Massachusetts General Hospital Cancer Center and Harvard Medical School, Charlestown, Massachusetts 02129, USA.

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July 2003